RnBeads (version 1.4.0)

is.valid,RnBDiffMeth-method: is.valid-methods

Description

Validate an RnBDiffMeth object, ie. verify that all differential methylation tables are specified and accounted for

Usage

"is.valid"(object, verbose = FALSE)

Arguments

object

RnBDiffMeth object

verbose

print more info to the logger

Value

TRUE iff all differential methylation tables are present and accounted for

Examples

library(RnBeads.hg19)
data(small.example.object)
logger.start(fname=NA)
dm1 <- rnb.execute.computeDiffMeth(rnb.set.example,pheno.cols=c("Sample_Group"),region.types=c("genes","tiling"))
dm2 <- rnb.execute.computeDiffMeth(rnb.set.example,pheno.cols=c("Sample_Group","Treatment"),region.types=c("promoters"))
dm.join1 <- join.diffMeth(dm1,dm2)
#the following joint object is invalid, because some region type - comparison combinations are missing
is.valid(dm.join1)
dm3 <- rnb.execute.computeDiffMeth(rnb.set.example,pheno.cols=c("Treatment"),region.types=c("genes","tiling"))
dm.join2 <- join.diffMeth(dm.join1,dm3)
#after joining the missing information, the new object is valid
is.valid(dm.join2)